HEADER OXIDOREDUCTASE 01-APR-16 5J54 TITLE THE STRUCTURE AND MECHANISM OF NOV1, A RESVERATROL-CLEAVING TITLE 2 DIOXYGENASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAROTENOID OXYGENASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOVOSPHINGOBIUM AROMATICIVORANS (STRAIN DSM SOURCE 3 12444 / F199); SOURCE 4 ORGANISM_TAXID: 279238; SOURCE 5 STRAIN: DSM 12444 / F199; SOURCE 6 GENE: SARO_0802; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DIOXYGENASE, RESVERATROL, STILBENE, CAROTENOID, BETA-PROPELLER, KEYWDS 2 METALLOPROTEIN, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR R.P.MCANDREW,J.H.PEREIRA,N.SATHITSUKSANOH,K.L.SALE,B.A.SIMMONS, AUTHOR 2 P.D.ADAMS REVDAT 4 27-SEP-23 5J54 1 REMARK REVDAT 3 16-MAR-22 5J54 1 REMARK REVDAT 2 04-JAN-17 5J54 1 JRNL REVDAT 1 30-NOV-16 5J54 0 JRNL AUTH R.P.MCANDREW,N.SATHITSUKSANOH,M.M.MBUGHUNI,R.A.HEINS, JRNL AUTH 2 J.H.PEREIRA,A.GEORGE,K.L.SALE,B.G.FOX,B.A.SIMMONS,P.D.ADAMS JRNL TITL STRUCTURE AND MECHANISM OF NOV1, A RESVERATROL-CLEAVING JRNL TITL 2 DIOXYGENASE. JRNL REF PROC. NATL. ACAD. SCI. V. 113 14324 2016 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 27911781 JRNL DOI 10.1073/PNAS.1608917113 REMARK 2 REMARK 2 RESOLUTION. 1.89 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX DEV_2276 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.89 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.338 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 54816 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.656 REMARK 3 FREE R VALUE TEST SET COUNT : 2004 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 49.8545 - 4.5541 1.00 3976 150 0.1460 0.1740 REMARK 3 2 4.5541 - 3.6151 1.00 3854 145 0.1170 0.1260 REMARK 3 3 3.6151 - 3.1582 1.00 3813 144 0.1320 0.1710 REMARK 3 4 3.1582 - 2.8694 1.00 3780 145 0.1430 0.1670 REMARK 3 5 2.8694 - 2.6638 1.00 3796 142 0.1420 0.1740 REMARK 3 6 2.6638 - 2.5067 1.00 3749 148 0.1440 0.2020 REMARK 3 7 2.5067 - 2.3812 1.00 3763 147 0.1430 0.1640 REMARK 3 8 2.3812 - 2.2776 1.00 3745 138 0.1420 0.1810 REMARK 3 9 2.2776 - 2.1899 1.00 3777 145 0.1590 0.1860 REMARK 3 10 2.1899 - 2.1143 1.00 3748 146 0.1560 0.2190 REMARK 3 11 2.1143 - 2.0482 1.00 3741 138 0.1800 0.2390 REMARK 3 12 2.0482 - 1.9896 1.00 3730 147 0.2000 0.2870 REMARK 3 13 1.9896 - 1.9373 1.00 3759 144 0.2200 0.2510 REMARK 3 14 1.9373 - 1.8900 0.96 3581 125 0.3050 0.3000 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.182 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.480 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 3954 REMARK 3 ANGLE : 0.997 5358 REMARK 3 CHIRALITY : 0.061 548 REMARK 3 PLANARITY : 0.007 713 REMARK 3 DIHEDRAL : 15.200 2304 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 27 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.5991 3.6354 -7.5210 REMARK 3 T TENSOR REMARK 3 T11: 0.1881 T22: 0.2647 REMARK 3 T33: 0.2186 T12: 0.0314 REMARK 3 T13: 0.0196 T23: -0.0020 REMARK 3 L TENSOR REMARK 3 L11: 1.1657 L22: 2.4750 REMARK 3 L33: 2.5307 L12: -0.1834 REMARK 3 L13: 0.2615 L23: -0.2743 REMARK 3 S TENSOR REMARK 3 S11: 0.0630 S12: 0.0263 S13: 0.1045 REMARK 3 S21: 0.0957 S22: -0.0134 S23: 0.3262 REMARK 3 S31: -0.2863 S32: -0.1970 S33: -0.0190 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 28 THROUGH 148 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.0079 -1.6761 -15.2538 REMARK 3 T TENSOR REMARK 3 T11: 0.1365 T22: 0.1836 REMARK 3 T33: 0.1761 T12: -0.0049 REMARK 3 T13: -0.0042 T23: -0.0020 REMARK 3 L TENSOR REMARK 3 L11: 0.7866 L22: 2.2434 REMARK 3 L33: 2.3612 L12: -0.0827 REMARK 3 L13: -0.2736 L23: -0.3248 REMARK 3 S TENSOR REMARK 3 S11: 0.0356 S12: 0.0390 S13: 0.0386 REMARK 3 S21: -0.0931 S22: 0.0170 S23: -0.0928 REMARK 3 S31: -0.0917 S32: 0.0898 S33: -0.0488 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 149 THROUGH 190 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.1010 -8.9373 -29.3696 REMARK 3 T TENSOR REMARK 3 T11: 0.2364 T22: 0.2960 REMARK 3 T33: 0.2570 T12: 0.0298 REMARK 3 T13: 0.0648 T23: -0.0167 REMARK 3 L TENSOR REMARK 3 L11: 1.1462 L22: 1.8567 REMARK 3 L33: 2.7772 L12: -0.2496 REMARK 3 L13: 0.3123 L23: 0.1003 REMARK 3 S TENSOR REMARK 3 S11: 0.0474 S12: 0.1945 S13: -0.0591 REMARK 3 S21: -0.3824 S22: -0.0059 S23: -0.2689 REMARK 3 S31: -0.1142 S32: 0.3506 S33: -0.0548 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 191 THROUGH 293 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.7748 -11.9055 -37.4985 REMARK 3 T TENSOR REMARK 3 T11: 0.3253 T22: 0.2591 REMARK 3 T33: 0.1931 T12: 0.0736 REMARK 3 T13: 0.0067 T23: -0.0344 REMARK 3 L TENSOR REMARK 3 L11: 0.8690 L22: 2.2401 REMARK 3 L33: 2.1746 L12: 0.4763 REMARK 3 L13: 0.1452 L23: 0.5874 REMARK 3 S TENSOR REMARK 3 S11: 0.0276 S12: 0.2358 S13: -0.0590 REMARK 3 S21: -0.5038 S22: -0.0269 S23: -0.0019 REMARK 3 S31: -0.1979 S32: 0.0986 S33: 0.0072 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 294 THROUGH 325 ) REMARK 3 ORIGIN FOR THE GROUP (A): -36.3645 -8.7754 -32.1320 REMARK 3 T TENSOR REMARK 3 T11: 0.3265 T22: 0.3194 REMARK 3 T33: 0.3347 T12: 0.1432 REMARK 3 T13: -0.0779 T23: -0.0733 REMARK 3 L TENSOR REMARK 3 L11: 1.1314 L22: 4.4450 REMARK 3 L33: 1.6979 L12: -0.2129 REMARK 3 L13: 0.0629 L23: -0.1802 REMARK 3 S TENSOR REMARK 3 S11: 0.0914 S12: 0.1010 S13: 0.1006 REMARK 3 S21: -0.3345 S22: -0.1097 S23: 0.6958 REMARK 3 S31: -0.3016 S32: -0.4660 S33: 0.0430 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 326 THROUGH 373 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.7636 -23.2097 -29.7014 REMARK 3 T TENSOR REMARK 3 T11: 0.2536 T22: 0.1954 REMARK 3 T33: 0.2562 T12: 0.0198 REMARK 3 T13: -0.0469 T23: -0.0526 REMARK 3 L TENSOR REMARK 3 L11: 0.9949 L22: 1.5213 REMARK 3 L33: 4.3102 L12: 0.0662 REMARK 3 L13: -0.1198 L23: 0.8160 REMARK 3 S TENSOR REMARK 3 S11: 0.0458 S12: 0.0753 S13: -0.0700 REMARK 3 S21: -0.1956 S22: -0.1399 S23: 0.1485 REMARK 3 S31: 0.2724 S32: -0.2354 S33: 0.0768 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 374 THROUGH 404 ) REMARK 3 ORIGIN FOR THE GROUP (A): -39.9135 -19.2435 -16.7218 REMARK 3 T TENSOR REMARK 3 T11: 0.1768 T22: 0.3648 REMARK 3 T33: 0.3339 T12: -0.0491 REMARK 3 T13: -0.0356 T23: -0.0744 REMARK 3 L TENSOR REMARK 3 L11: 5.2608 L22: 5.8448 REMARK 3 L33: 4.8818 L12: -2.4502 REMARK 3 L13: -1.7343 L23: 2.7363 REMARK 3 S TENSOR REMARK 3 S11: 0.1174 S12: 0.2737 S13: -0.1402 REMARK 3 S21: -0.1301 S22: -0.3814 S23: 0.6154 REMARK 3 S31: 0.1118 S32: -0.8526 S33: 0.1591 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 405 THROUGH 441 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.3490 -20.6772 -11.1038 REMARK 3 T TENSOR REMARK 3 T11: 0.2011 T22: 0.1805 REMARK 3 T33: 0.2162 T12: -0.0557 REMARK 3 T13: 0.0071 T23: 0.0062 REMARK 3 L TENSOR REMARK 3 L11: 1.4716 L22: 3.1950 REMARK 3 L33: 3.2165 L12: 0.2480 REMARK 3 L13: 0.3259 L23: 0.8042 REMARK 3 S TENSOR REMARK 3 S11: 0.1204 S12: -0.0510 S13: -0.2356 REMARK 3 S21: 0.2532 S22: -0.1418 S23: 0.0006 REMARK 3 S31: 0.4979 S32: -0.2303 S33: 0.0345 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 442 THROUGH 488 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.2914 -14.4167 -7.0073 REMARK 3 T TENSOR REMARK 3 T11: 0.2108 T22: 0.1908 REMARK 3 T33: 0.2097 T12: -0.0235 REMARK 3 T13: 0.0124 T23: 0.0103 REMARK 3 L TENSOR REMARK 3 L11: 1.5618 L22: 2.6281 REMARK 3 L33: 2.9719 L12: 0.3834 REMARK 3 L13: 0.3990 L23: 0.4570 REMARK 3 S TENSOR REMARK 3 S11: 0.0771 S12: -0.0677 S13: -0.1905 REMARK 3 S21: 0.2180 S22: -0.1289 S23: 0.1247 REMARK 3 S31: 0.1800 S32: -0.1569 S33: 0.0559 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5J54 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-APR-16. REMARK 100 THE DEPOSITION ID IS D_1000219963. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 4.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NOIR-1 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54816 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.890 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.89 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 71.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.52000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.340 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 5J53 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.16 M MGCL2, 0.08 M TRIS PH 8.5, 18% REMARK 280 (W/V) PEG 4000, AND 20% GLYCEROL, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 46.78450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.07150 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 72.80000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 46.78450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.07150 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 72.80000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 46.78450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 50.07150 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 72.80000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 46.78450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 50.07150 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 72.80000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 924 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ARG A 383 REMARK 465 GLY A 384 REMARK 465 GLY A 385 REMARK 465 SER A 386 REMARK 465 ALA A 387 REMARK 465 GLY A 388 REMARK 465 GLY A 389 REMARK 465 LEU A 390 REMARK 465 GLU A 489 REMARK 465 LYS A 490 REMARK 465 VAL A 491 REMARK 465 LEU A 492 REMARK 465 ALA A 493 REMARK 465 ALA A 494 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 823 O HOH A 925 2.17 REMARK 500 OE2 GLU A 291 O HOH A 601 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 833 O HOH A 833 2555 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 52 NE - CZ - NH1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG A 52 NE - CZ - NH2 ANGL. DEV. = -4.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER A 17 -70.32 -119.22 REMARK 500 PHE A 59 -7.21 -54.90 REMARK 500 SER A 283 -68.64 -122.20 REMARK 500 LEU A 475 -117.90 -105.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 167 NE2 REMARK 620 2 HIS A 218 NE2 94.3 REMARK 620 3 HIS A 284 NE2 104.6 103.2 REMARK 620 4 HIS A 476 NE2 93.4 155.6 97.2 REMARK 620 5 OXY A 502 O1 162.4 81.6 93.1 84.1 REMARK 620 6 OXY A 502 O2 136.2 74.4 119.1 84.1 26.2 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OXY A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue STL A 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5J53 RELATED DB: PDB REMARK 900 5J53 CONTAINS THE APO STRUCTURE REMARK 900 RELATED ID: 5J55 RELATED DB: PDB DBREF 5J54 A 1 494 UNP Q2GA76 Q2GA76_NOVAD 1 494 SEQRES 1 A 494 MET ALA GLN PHE PRO ASN THR PRO SER PHE THR GLY PHE SEQRES 2 A 494 ASN THR PRO SER ARG ILE GLU ALA ASP ILE ALA ASP LEU SEQRES 3 A 494 ALA HIS GLU GLY THR ILE PRO GLN GLY LEU ASN GLY ALA SEQRES 4 A 494 PHE TYR ARG VAL GLN PRO ASP PRO GLN PHE PRO PRO ARG SEQRES 5 A 494 LEU ASP ASP ASP ILE ALA PHE ASN GLY ASP GLY MET ILE SEQRES 6 A 494 THR ARG PHE HIS ILE HIS ASP GLY GLN VAL ASP PHE ARG SEQRES 7 A 494 GLN ARG TRP ALA LYS THR ASP LYS TRP LYS LEU GLU ASN SEQRES 8 A 494 ALA ALA GLY LYS ALA LEU PHE GLY ALA TYR ARG ASN PRO SEQRES 9 A 494 LEU THR ASP ASP GLU ALA VAL LYS GLY GLU ILE ARG SER SEQRES 10 A 494 THR ALA ASN THR ASN ALA PHE VAL PHE GLY GLY LYS LEU SEQRES 11 A 494 TRP ALA MET LYS GLU ASP SER PRO ALA LEU VAL MET ASP SEQRES 12 A 494 PRO ALA THR MET GLU THR PHE GLY PHE GLU LYS PHE GLY SEQRES 13 A 494 GLY LYS MET THR GLY GLN THR PHE THR ALA HIS PRO LYS SEQRES 14 A 494 VAL ASP PRO LYS THR GLY ASN MET VAL ALA ILE GLY TYR SEQRES 15 A 494 ALA ALA SER GLY LEU CYS THR ASP ASP VAL THR TYR MET SEQRES 16 A 494 GLU VAL SER PRO GLU GLY GLU LEU VAL ARG GLU VAL TRP SEQRES 17 A 494 PHE LYS VAL PRO TYR TYR CYS MET MET HIS ASP PHE GLY SEQRES 18 A 494 ILE THR GLU ASP TYR LEU VAL LEU HIS ILE VAL PRO SER SEQRES 19 A 494 ILE GLY SER TRP GLU ARG LEU GLU GLN GLY LYS PRO HIS SEQRES 20 A 494 PHE GLY PHE ASP THR THR MET PRO VAL HIS LEU GLY ILE SEQRES 21 A 494 ILE PRO ARG ARG ASP GLY VAL ARG GLN GLU ASP ILE ARG SEQRES 22 A 494 TRP PHE THR ARG ASP ASN CYS PHE ALA SER HIS VAL LEU SEQRES 23 A 494 ASN ALA TRP GLN GLU GLY THR LYS ILE HIS PHE VAL THR SEQRES 24 A 494 CYS GLU ALA LYS ASN ASN MET PHE PRO PHE PHE PRO ASP SEQRES 25 A 494 VAL HIS GLY ALA PRO PHE ASN GLY MET GLU ALA MET SER SEQRES 26 A 494 HIS PRO THR ASP TRP VAL VAL ASP MET ALA SER ASN GLY SEQRES 27 A 494 GLU ASP PHE ALA GLY ILE VAL LYS LEU SER ASP THR ALA SEQRES 28 A 494 ALA GLU PHE PRO ARG ILE ASP ASP ARG PHE THR GLY GLN SEQRES 29 A 494 LYS THR ARG HIS GLY TRP PHE LEU GLU MET ASP MET LYS SEQRES 30 A 494 ARG PRO VAL GLU LEU ARG GLY GLY SER ALA GLY GLY LEU SEQRES 31 A 494 LEU MET ASN CYS LEU PHE HIS LYS ASP PHE GLU THR GLY SEQRES 32 A 494 ARG GLU GLN HIS TRP TRP CYS GLY PRO VAL SER SER LEU SEQRES 33 A 494 GLN GLU PRO CYS PHE VAL PRO ARG ALA LYS ASP ALA PRO SEQRES 34 A 494 GLU GLY ASP GLY TRP ILE VAL GLN VAL CYS ASN ARG LEU SEQRES 35 A 494 GLU GLU GLN ARG SER ASP LEU LEU ILE PHE ASP ALA LEU SEQRES 36 A 494 ASP ILE GLU LYS GLY PRO VAL ALA THR VAL ASN ILE PRO SEQRES 37 A 494 ILE ARG LEU ARG PHE GLY LEU HIS GLY ASN TRP ALA ASN SEQRES 38 A 494 ALA ASP GLU ILE GLY LEU ALA GLU LYS VAL LEU ALA ALA HET FE A 501 1 HET OXY A 502 2 HET STL A 503 29 HETNAM FE FE (III) ION HETNAM OXY OXYGEN MOLECULE HETNAM STL RESVERATROL FORMUL 2 FE FE 3+ FORMUL 3 OXY O2 FORMUL 4 STL C14 H12 O3 FORMUL 5 HOH *348(H2 O) HELIX 1 AA1 THR A 7 THR A 15 5 9 HELIX 2 AA2 ILE A 57 GLY A 61 5 5 HELIX 3 AA3 THR A 84 GLY A 94 1 11 HELIX 4 AA4 ASN A 103 ASP A 107 5 5 HELIX 5 AA5 ASP A 108 LYS A 112 5 5 HELIX 6 AA6 LYS A 154 LYS A 158 5 5 HELIX 7 AA7 SER A 237 GLN A 243 1 7 HELIX 8 AA8 ARG A 268 ILE A 272 5 5 HELIX 9 AA9 GLY A 320 ALA A 323 5 4 HELIX 10 AB1 ASP A 358 THR A 362 5 5 HELIX 11 AB2 ASP A 456 GLY A 460 5 5 HELIX 12 AB3 ASP A 483 ILE A 485 5 3 SHEET 1 AA1 5 ALA A 21 ILE A 23 0 SHEET 2 AA1 5 GLN A 74 TRP A 81 -1 O PHE A 77 N ILE A 23 SHEET 3 AA1 5 GLY A 63 HIS A 71 -1 N ARG A 67 O ARG A 78 SHEET 4 AA1 5 GLY A 38 PRO A 45 -1 N ARG A 42 O THR A 66 SHEET 5 AA1 5 GLY A 477 ASN A 481 -1 O ASN A 478 N TYR A 41 SHEET 1 AA2 5 HIS A 28 GLY A 30 0 SHEET 2 AA2 5 ALA A 463 ILE A 467 -1 O THR A 464 N GLU A 29 SHEET 3 AA2 5 ARG A 446 ASP A 453 -1 N LEU A 449 O VAL A 465 SHEET 4 AA2 5 GLY A 433 ARG A 441 -1 N GLN A 437 O LEU A 450 SHEET 5 AA2 5 SER A 414 LEU A 416 -1 N SER A 415 O ASN A 440 SHEET 1 AA3 5 HIS A 28 GLY A 30 0 SHEET 2 AA3 5 ALA A 463 ILE A 467 -1 O THR A 464 N GLU A 29 SHEET 3 AA3 5 ARG A 446 ASP A 453 -1 N LEU A 449 O VAL A 465 SHEET 4 AA3 5 GLY A 433 ARG A 441 -1 N GLN A 437 O LEU A 450 SHEET 5 AA3 5 CYS A 420 PRO A 423 -1 N VAL A 422 O TRP A 434 SHEET 1 AA4 4 ASN A 122 PHE A 126 0 SHEET 2 AA4 4 LYS A 129 MET A 133 -1 O TRP A 131 N PHE A 124 SHEET 3 AA4 4 LEU A 140 MET A 142 -1 O LEU A 140 N ALA A 132 SHEET 4 AA4 4 THR A 149 PHE A 152 -1 O GLY A 151 N VAL A 141 SHEET 1 AA5 4 LYS A 169 VAL A 170 0 SHEET 2 AA5 4 MET A 177 TYR A 182 -1 O VAL A 178 N LYS A 169 SHEET 3 AA5 4 ASP A 191 VAL A 197 -1 O MET A 195 N ALA A 179 SHEET 4 AA5 4 LEU A 203 LYS A 210 -1 O PHE A 209 N VAL A 192 SHEET 1 AA6 4 GLY A 221 ILE A 222 0 SHEET 2 AA6 4 TYR A 226 ILE A 231 -1 O VAL A 228 N GLY A 221 SHEET 3 AA6 4 VAL A 256 PRO A 262 -1 O GLY A 259 N LEU A 229 SHEET 4 AA6 4 ARG A 273 ARG A 277 -1 O ARG A 273 N ILE A 260 SHEET 1 AA7 2 SER A 234 ILE A 235 0 SHEET 2 AA7 2 GLY A 249 PHE A 250 -1 O GLY A 249 N ILE A 235 SHEET 1 AA8 4 PHE A 281 GLU A 291 0 SHEET 2 AA8 4 LYS A 294 ALA A 302 -1 O HIS A 296 N TRP A 289 SHEET 3 AA8 4 SER A 325 ASP A 333 -1 O THR A 328 N THR A 299 SHEET 4 AA8 4 GLY A 343 LYS A 346 -1 O GLY A 343 N VAL A 331 SHEET 1 AA9 4 ALA A 352 ARG A 356 0 SHEET 2 AA9 4 HIS A 368 GLU A 373 -1 O LEU A 372 N GLU A 353 SHEET 3 AA9 4 CYS A 394 ASP A 399 -1 O CYS A 394 N GLU A 373 SHEET 4 AA9 4 GLU A 405 TRP A 409 -1 O GLN A 406 N HIS A 397 LINK NE2 HIS A 167 FE FE A 501 1555 1555 2.04 LINK NE2 HIS A 218 FE FE A 501 1555 1555 2.01 LINK NE2 HIS A 284 FE FE A 501 1555 1555 2.04 LINK NE2 HIS A 476 FE FE A 501 1555 1555 2.03 LINK FE FE A 501 O1 OXY A 502 1555 1555 2.07 LINK FE FE A 501 O2 OXY A 502 1555 1555 2.66 SITE 1 AC1 5 HIS A 167 HIS A 218 HIS A 284 HIS A 476 SITE 2 AC1 5 OXY A 502 SITE 1 AC2 6 THR A 121 HIS A 218 HIS A 284 HIS A 476 SITE 2 AC2 6 FE A 501 STL A 503 SITE 1 AC3 11 PHE A 59 TYR A 101 THR A 121 LYS A 134 SITE 2 AC3 11 HIS A 218 SER A 283 HIS A 284 PHE A 307 SITE 3 AC3 11 GLU A 353 PHE A 354 OXY A 502 CRYST1 93.569 100.143 145.600 90.00 90.00 90.00 I 2 2 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010687 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009986 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006868 0.00000